R: Plot a Summary of the Link Community Algorithm Output

plotLinkCommSumm {linkcomm} | R Documentation

## Plot a Summary of the Link Community Algorithm Output

### Description

This function is called by `plot.linkcomm` to plot a summary of the output of the `linkcomm` algorithm.

### Usage

    plotLinkCommSumm(x, col = TRUE, pal = brewer.pal(9, "Set1"), right = TRUE,
                     droptrivial = TRUE, verbose = TRUE, ...)

### Arguments

`x` | An object of class `linkcomm`.
`col` | Logical, whether to colour link communities in the dendrogram. Defaults to TRUE.
`pal` | A character vector describing a colour palette to be used for colouring the link community dendrogram. Defaults to `brewer.pal(9, "Set1")`.
`right` | Logical, whether to orient the dendrogram to the right. Defaults to TRUE.
`droptrivial` | Logical, whether to not colour communities of size 2. Defaults to TRUE.
`...` | Additional arguments to be passed to `plot`.
`verbose` | Logical, whether to display the progress of colouring the dendrogram on the screen. Defaults to TRUE.

### Details

Here we describe the parameters for plotting link community summaries using:
`plot(x, type = "summary")`

### Value

A summary plot of the output from the `linkcomm` algorithm.

### Author(s)

Alex T. Kalinka alex.t.kalinka@gmail.com

### References

Kalinka, A.T. and Tomancak, P. (2011). linkcomm: an R package for the generation, visualization, and analysis of link communities in networks of arbitrary size and type. Bioinformatics 27, 2011-2012.

### See Also

`plot.linkcomm`

### Examples

    ## Generate graph and extract link communities.
    g <- swiss[,3:4]
    lc <- getLinkCommunities(g)

    ## Plot the modularity of the link communities.
    plot(lc, type = "summary")

[Package linkcomm version 1.0-14 Index]